title: Molecular evolution of the HD-ZIP I gene family in legume genomes.
abstract: Homeodomain leucine zipper I (HD-ZIP I) genes were used to increase the plasticity of plants by mediating external signals and regulating growth in response to environmental conditions. The way genomic histories drove the evolution of the HD-ZIP I family in legume species was described; HD-ZIP I genes were searched in Lotus japonicus, Medicago truncatula, Cajanus cajan and Phaseolus vulgaris, and then divided into five clades through phylogenetic analysis. Microsynteny analysis was made based on genomic segments containing the HD-ZIP I genes. Some pairs turned out to conform with syntenic genome regions, while others corresponded to those that were inverted, expanded, or contracted after the divergence of legumes. Besides, we dated their duplications by Ks analysis and demonstrated that all the blocks were formed after the monocot-dicot split; we observed Ka/Ks ratios representing strong purifying selections in the four legume species which might have been followed by gene loss and rearrangement.
authors.affiliation: Key Lab of Crop Biology, School of Life Sciences, Anhui Agricultural University, Hefei 230036, China.
authors.forename: Zhen
authors.initials: Z
authors.lastname: Li
authors.forename: Haiyang
authors.initials: H
authors.lastname: Jiang
authors.forename: Lingyan
authors.initials: L
authors.lastname: Zhou
authors.forename: Lin
authors.initials: L
authors.lastname: Deng
authors.forename: Yongxiang
authors.initials: Y
authors.lastname: Lin
authors.forename: Xiaojian
authors.initials: X
authors.lastname: Peng
authors.forename: Hanwei
authors.initials: H
authors.lastname: Yan
authors.forename: Beijiu
authors.initials: B
authors.lastname: Cheng
mesh_terms: D000595:Amino Acid Sequence; D019143:Evolution, Molecular; D020224:Expressed Sequence Tags; D007887:Fabaceae / Q000235:genetics*; D018745:Genome, Plant; D018398:Homeodomain Proteins / Q000737:chemistry / Q000235:genetics*; D008969:Molecular Sequence Data; D010802:Phylogeny; D017386:Sequence Homology, Amino Acid
chemical_list: D018398:Homeodomain Proteins
keywords: Cajanus cajan; Cc; Genetic variation; HD-ZIP I; HD-Zip protein; Homeodomain leucine zipper I; Ka; Ks; Lj; Lotus japonicas; Medicago truncatula; Mt; NLS; Nonsynonymous substitutions per non-synonymous site; Nuclear localization signal; ORF; Open reading frame; Phaseolus vulgaris; Pv; Synonymous substitutions per synonymous site; Syntenic homology